Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009289.1 Hibiscus syriacus cultivar Beakdansim tig00112988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1661737
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:732137 original size:28 final size:27
Alignment explanation
Indices: 732101--732200 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 27
732091 AAAAAGATTG
* *
732101 AATAGTTTAGGTATGTATTTTGACCTAA
1 AATACTTTAGGTAT-TATTTTGACCAAA
** *
732129 AATACTTTAGGTGCCTATTTTGACAAAA
1 AATACTTTAGGT-ATTATTTTGACCAAA
*
732157 ATATAACTTTAGATACTTATTTTGACCAAAA
1 A-AT-ACTTTAGGTA-TTATTTTGACC-AAA
*
732188 AATATTTTAGGTA
1 AATACTTTAGGTA
732201 CTTAAATTGA
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
28 23 0.41
29 10 0.18
30 19 0.34
31 4 0.07
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (27 bp):
AATACTTTAGGTATTATTTTGACCAAA
Found at i:732168 original size:30 final size:28
Alignment explanation
Indices: 732116--732197 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 28
732106 TTTAGGTATG
** * *
732116 TATTTTGACCTAAAATACTTTAGGTGCC
1 TATTTTGACAAAAAATACTTTAGATACC
*
732144 TATTTTGACAAAAATATAACTTTAGATACT
1 TATTTTGACAAAAA-AT-ACTTTAGATACC
*
732174 TATTTTGACCAAAAAATATTTTAG
1 TATTTTGA-CAAAAAATACTTTAG
732198 GTACTTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 12 0.27
29 8 0.18
30 19 0.42
31 6 0.13
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (28 bp):
TATTTTGACAAAAAATACTTTAGATACC
Found at i:734963 original size:21 final size:21
Alignment explanation
Indices: 734939--734991 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
734929 GAGTGTGGCA
*
734939 GCGGCCGGCGAACTGCAGACG
1 GCGGCCGGCGAACGGCAGACG
** * *
734960 GCGGATGTCGGACGGCAGACG
1 GCGGCCGGCGAACGGCAGACG
*
734981 GTGGCCGGCGA
1 GCGGCCGGCGA
734992 TGATAAACGA
Statistics
Matches: 22, Mismatches: 10, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.28, G:0.47, T:0.08
Consensus pattern (21 bp):
GCGGCCGGCGAACGGCAGACG
Found at i:739919 original size:22 final size:22
Alignment explanation
Indices: 739888--739929 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
739878 GTTTAAAAAT
739888 ACTAACATTTATATAGCTATCA
1 ACTAACATTTATATAGCTATCA
*
739910 ACTAATATTTATATAGCTAT
1 ACTAACATTTATATAGCTAT
739930 TTAATAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (22 bp):
ACTAACATTTATATAGCTATCA
Found at i:740901 original size:22 final size:21
Alignment explanation
Indices: 740876--740919 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
740866 TATTTTCATA
*
740876 TAATAACTTTATATCAATGCAT
1 TAAT-ACTTTATAACAATGCAT
* *
740898 TAATAGTTTATAACCATGCAT
1 TAATACTTTATAACAATGCAT
740919 T
1 T
740920 TTAATGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (21 bp):
TAATACTTTATAACAATGCAT
Found at i:743251 original size:22 final size:20
Alignment explanation
Indices: 743192--743256 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 20
743182 CTGAACCAAG
743192 ATAAA-AAATAAA-AACAA-A
1 ATAAATAAATAAATAA-AATA
743210 ATAAATAAATAAATAAAATA
1 ATAAATAAATAAATAAAATA
**
743230 ATAATATATAATAAATGTAATA
1 ATAA-ATA-AATAAATAAAATA
743252 ATAAA
1 ATAAA
743257 AGCTATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 5 0.12
19 9 0.22
20 7 0.17
21 4 0.10
22 15 0.38
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
ATAAATAAATAAATAAAATA
Found at i:743322 original size:33 final size:32
Alignment explanation
Indices: 743279--743391 Score: 127
Period size: 34 Copynumber: 3.3 Consensus size: 32
743269 TTATGTTACT
743279 TGTTTTCAAAAATTGTTTAAAAAAAATATTATA
1 TGTTTTCAAAAATT-TTTAAAAAAAATATTATA
* * *
743312 CGTTTTCAAAACTATTTAAAAAAAATATATTATA
1 TGTTTTCAAAAAT-TTTTAAAAAAA-ATATTATA
* *
743346 TGTTTTCAAAATTATTTTAAAAACTATATATTATA
1 TGTTTTCAAAAAT-TTTTAAAAA--AAATATTATA
743381 TGTTTTCAAAA
1 TGTTTTCAAAA
743392 CCGTTTTAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
33 20 0.29
34 29 0.42
35 19 0.28
36 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (32 bp):
TGTTTTCAAAAATTTTTAAAAAAAATATTATA
Found at i:743365 original size:35 final size:34
Alignment explanation
Indices: 743279--743391 Score: 142
Period size: 35 Copynumber: 3.3 Consensus size: 34
743269 TTATGTTACT
*
743279 TGTTTTCAAAA-ATTGTTTAAAAAAA-ATATTATA
1 TGTTTTCAAAATATT-TTAAAAAAAATATATTATA
*
743312 CGTTTTCAAAACTA-TTTAAAAAAAATATATTATA
1 TGTTTTCAAAA-TATTTTAAAAAAAATATATTATA
**
743346 TGTTTTCAAAATTATTTTAAAAACTATATATTATA
1 TGTTTTCAAAA-TATTTTAAAAAAAATATATTATA
743381 TGTTTTCAAAA
1 TGTTTTCAAAA
743392 CCGTTTTAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
33 19 0.27
34 21 0.30
35 30 0.43
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (34 bp):
TGTTTTCAAAATATTTTAAAAAAAATATATTATA
Found at i:743399 original size:35 final size:33
Alignment explanation
Indices: 743279--743409 Score: 131
Period size: 35 Copynumber: 3.8 Consensus size: 33
743269 TTATGTTACT
* *
743279 TGTTTTCAAAAATTGTTTAAAAA--AAATATTATA
1 TGTTTTC-AAAACT-TTTAAAAACTATATATTATA
* **
743312 CGTTTTCAAAACTATTTAAAAAAAATATATTATA
1 TGTTTTCAAAACT-TTTAAAAACTATATATTATA
*
743346 TGTTTTCAAAATTATTTTAAAAACTATATATTATA
1 TGTTTTCAAAA--CTTTTAAAAACTATATATTATA
743381 TGTTTTCAAAACCGTTTTAAAAACTATAT
1 TGTTTTCAAAA-C-TTTTAAAAACTATAT
743410 TATTTTTAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
32 13 0.16
33 6 0.07
34 19 0.23
35 44 0.53
36 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.43
Consensus pattern (33 bp):
TGTTTTCAAAACTTTTAAAAACTATATATTATA
Found at i:743449 original size:2 final size:2
Alignment explanation
Indices: 743442--743468 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
743432 TTCCAAAAAT
743442 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
743469 TCAAAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:746396 original size:17 final size:17
Alignment explanation
Indices: 746374--746411 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
746364 AACTAAAATT
746374 AAAATT-GGAAAAACAGC
1 AAAATTAGGAAAAACA-C
*
746391 AAAATTAGGACAAACAC
1 AAAATTAGGAAAAACAC
746408 AAAA
1 AAAA
746412 GATTAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.63, C:0.13, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAATTAGGAAAAACAC
Found at i:747812 original size:53 final size:52
Alignment explanation
Indices: 747753--747924 Score: 213
Period size: 53 Copynumber: 3.2 Consensus size: 52
747743 CCTTTTCTTT
* *
747753 GAACAATCTTC-GACCAGCGGGTTCGCTCCTTCTTGCTTCAAGGAGTAAAACTC
1 GAACAATCTTCTG-CCA-CGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
* *
747806 GAACAATCTTCTGCCTACAGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTC
1 GAACAATCTTCTGCC-ACGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
* * * *
747859 GAACAATTTTCTGTCTACGGGTTTGCTCCCTCTTGCTTC-AGAGAGTAGAACTT
1 GAACAATCTTCTG-CCACGGGTTCGCTCCCTCTTGCTTCAAG-GAGTAGAACTC
747912 GAACAATCTTCTG
1 GAACAATCTTCTG
747925 GTGTGATTAT
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
52 1 0.01
53 100 0.96
54 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (52 bp):
GAACAATCTTCTGCCACGGGTTCGCTCCCTCTTGCTTCAAGGAGTAGAACTC
Found at i:748500 original size:42 final size:42
Alignment explanation
Indices: 748454--748678 Score: 184
Period size: 42 Copynumber: 5.1 Consensus size: 42
748444 TTACAAATTA
*
748454 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATAG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
* * *
748496 CCCGAAGAACTTCATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
* ** * * ** **
748538 CACTTACTGACGGATTTGCTTCAAT-ACT-CTTCGGTGAAGGCTTACAAATTA
1 C-C---C-GAAGGATTT-AATC-ATCA-TGC-TC-G-AAAGACTTACTGATGG
*
748589 CCCGAAGGATTTAATCATCATACTCGAAAGACTTACTGATGG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
* * *
748631 CCCGAAGGACTTAAACATCATGCTCGAAAGACTTATTGATGG
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
748673 CCCGAA
1 CCCGAA
748679 TGACTTAAAT
Statistics
Matches: 143, Mismatches: 27, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
42 93 0.65
43 2 0.01
44 5 0.03
45 4 0.03
46 9 0.06
47 7 0.05
48 5 0.03
49 5 0.03
50 2 0.01
51 11 0.08
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
Found at i:748529 original size:22 final size:21
Alignment explanation
Indices: 748467--748530 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 21
748457 GAAGGATTTA
748467 ATCATCATGCTCGAAAGACTT
1 ATCATCATGCTCGAAAGACTT
* *
748488 A-C-TGATAGCCCG-AAGAACTT
1 ATCATCAT-GCTCGAAAG-ACTT
748508 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
748530 A
1 A
748531 CTGATGGCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
19 6 0.18
20 9 0.27
21 3 0.09
22 9 0.27
23 6 0.18
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:748627 original size:135 final size:135
Alignment explanation
Indices: 748385--748673 Score: 470
Period size: 135 Copynumber: 2.1 Consensus size: 135
748375 TTATCTTACC
* * *
748385 CGAAAAACTTAATGATGGCACTTACTGATAGATTTGCTTCACTACTCTTCCGTGAAGGCTTACAA
1 CGAAAGACTTAATGATGGCACTTACTGACAGATTTGCTTCAATACTCTTCCGTGAAGGCTTACAA
* * *
748450 ATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGAACTTCATCATC
66 ATTACCCGAAGGATTTAATCATCATACTCGAAAGACTTACTGATAGCCCGAAGAACTTAAACATC
748515 ATGCT
131 ATGCT
* * *
748520 CGAAAGACTTACTGATGGCACTTACTGACGGATTTGCTTCAATACTCTTCGGTGAAGGCTTACAA
1 CGAAAGACTTAATGATGGCACTTACTGACAGATTTGCTTCAATACTCTTCCGTGAAGGCTTACAA
* *
748585 ATTACCCGAAGGATTTAATCATCATACTCGAAAGACTTACTGATGGCCCGAAGGACTTAAACATC
66 ATTACCCGAAGGATTTAATCATCATACTCGAAAGACTTACTGATAGCCCGAAGAACTTAAACATC
748650 ATGCT
131 ATGCT
*
748655 CGAAAGACTTATTGATGGC
1 CGAAAGACTTAATGATGGC
748674 CCGAATGACT
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
135 142 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (135 bp):
CGAAAGACTTAATGATGGCACTTACTGACAGATTTGCTTCAATACTCTTCCGTGAAGGCTTACAA
ATTACCCGAAGGATTTAATCATCATACTCGAAAGACTTACTGATAGCCCGAAGAACTTAAACATC
ATGCT
Found at i:748641 original size:20 final size:20
Alignment explanation
Indices: 748613--748685 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
748603 TCATCATACT
748613 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
* * *
748633 CGAAGGACTTAAACATCAT-GCT
1 CGAAAGACTT--AC-TGATGGCC
*
748655 CGAAAGACTTATTGATGGCC
1 CGAAAGACTTACTGATGGCC
*
748675 CGAATGACTTA
1 CGAAAGACTTA
748686 AATTATTTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 3 0.07
20 22 0.54
22 13 0.32
23 3 0.07
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:748663 original size:22 final size:22
Alignment explanation
Indices: 748599--748665 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
748589 CCCGAAGGAT
* *
748599 TTAATCATCATACTCGAAAGAC
1 TTAAACATCATGCTCGAAAGAC
* * *
748621 TT--AC-TGATGGCCCGAAGGAC
1 TTAAACATCAT-GCTCGAAAGAC
748641 TTAAACATCATGCTCGAAAGAC
1 TTAAACATCATGCTCGAAAGAC
748663 TTA
1 TTA
748666 TTGATGGCCC
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 11 0.33
22 16 0.48
23 3 0.09
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (22 bp):
TTAAACATCATGCTCGAAAGAC
Found at i:749227 original size:13 final size:13
Alignment explanation
Indices: 749197--749234 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
749187 TCTGATCTTC
749197 TTCTATCTTC-TT
1 TTCTATCTTCATT
*
749209 GT-TATCTTCATT
1 TTCTATCTTCATT
749221 TTCTATCTTCATT
1 TTCTATCTTCATT
749234 T
1 T
749235 CGGAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 7 0.32
12 4 0.18
13 11 0.50
ACGTcount: A:0.13, C:0.21, G:0.03, T:0.63
Consensus pattern (13 bp):
TTCTATCTTCATT
Found at i:751341 original size:2 final size:2
Alignment explanation
Indices: 751334--751398 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
751324 TAAACATCAT
751334 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
751376 TA TA TA TA TA TA TA -A AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
751399 AAAAAAAACC
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:757507 original size:17 final size:17
Alignment explanation
Indices: 757485--757522 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
757475 AACTAAAATT
757485 AAAATT-GGAAAAACAAC
1 AAAATTAGGAAAAAC-AC
*
757502 AAAATTAGGACAAACAC
1 AAAATTAGGAAAAACAC
757519 AAAA
1 AAAA
757523 GATTAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.66, C:0.13, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAATTAGGAAAAACAC
Found at i:764736 original size:16 final size:16
Alignment explanation
Indices: 764715--764745 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
764705 GTTGGTGTCT
764715 GTTGGTGTCTGTTTCA
1 GTTGGTGTCTGTTTCA
764731 GTTGGTGTCTGTTTC
1 GTTGGTGTCTGTTTC
764746 TGAGCTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.13, G:0.32, T:0.52
Consensus pattern (16 bp):
GTTGGTGTCTGTTTCA
Found at i:769598 original size:21 final size:21
Alignment explanation
Indices: 769574--769615 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
769564 AGAAGAGCGT
769574 GGAAATGAAGAAGAAATTGGG
1 GGAAATGAAGAAGAAATTGGG
*
769595 GGAAATGATGAAGAAATTGGG
1 GGAAATGAAGAAGAAATTGGG
769616 ATAAGTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.38, T:0.17
Consensus pattern (21 bp):
GGAAATGAAGAAGAAATTGGG
Found at i:773757 original size:20 final size:20
Alignment explanation
Indices: 773741--773779 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
773731 ATCGCAATGC
773741 GATTTTCAAATTCGCAACGA
1 GATTTTCAAATTCGCAACGA
773761 GATTTTCAAATTCGCAACG
1 GATTTTCAAATTCGCAACG
773780 CTAATTACCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (20 bp):
GATTTTCAAATTCGCAACGA
Found at i:773820 original size:77 final size:77
Alignment explanation
Indices: 773692--773836 Score: 263
Period size: 77 Copynumber: 1.9 Consensus size: 77
773682 ATCGCAACGC
* *
773692 AATTCGCAACACTAATTACCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAAATTCGCA
1 AATTCGCAACACTAATTACCGATATAGGTAAACAGTAATATCGCAACGCGATTTTCAAATTCGCA
773757 ACGAGATTTTCA
66 ACGAGATTTTCA
*
773769 AATTCGCAACGCTAATTACCGATATAGGTAAACAGTAATATCGCAACGCGATTTTCAAATTCGCA
1 AATTCGCAACACTAATTACCGATATAGGTAAACAGTAATATCGCAACGCGATTTTCAAATTCGCA
773834 ACG
66 ACG
773837 GTAATTACCG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 65 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (77 bp):
AATTCGCAACACTAATTACCGATATAGGTAAACAGTAATATCGCAACGCGATTTTCAAATTCGCA
ACGAGATTTTCA
Found at i:773842 original size:57 final size:57
Alignment explanation
Indices: 773752--773859 Score: 198
Period size: 57 Copynumber: 1.9 Consensus size: 57
773742 ATTTTCAAAT
773752 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTAATA
1 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTAATA
* *
773809 TCGCAACGCGATTTTCAAATTCGCAACGGTAATTACCGATATAGGTAAACA
1 TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACA
773860 ACATTTGCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (57 bp):
TCGCAACGAGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAGTAATA
Found at i:774319 original size:95 final size:95
Alignment explanation
Indices: 774151--774425 Score: 514
Period size: 95 Copynumber: 2.9 Consensus size: 95
774141 GAAGTTATAA
*
774151 AGTGGGATTGAATAAGACAACCTCCCCTTAGTTTTTAGGGTTGCATGCTTAGAACAAATATATAG
1 AGTGGGATTGAATAAGACAACCTCCCCTTAGTTGTTAGGGTTGCATGCTTAGAACAAATATATAG
774216 AAGCATGCATGCAAGAAGATTTAATATAGT
66 AAGCATGCATGCAAGAAGATTTAATATAGT
774246 AGTGGGATTGAATAAGACAACCTCCCCTTAGTTGTTAGGGTTGCATGCTTAGAACAAATATATAG
1 AGTGGGATTGAATAAGACAACCTCCCCTTAGTTGTTAGGGTTGCATGCTTAGAACAAATATATAG
*
774311 AAGTATGCATGCAAGAAGATTTAATATAGT
66 AAGCATGCATGCAAGAAGATTTAATATAGT
* *
774341 AATGGGATTCAATAAGACAACCTCCCCTTAGTTGTTAGGGTTGCATGCTTAGAACAAATATATAG
1 AGTGGGATTGAATAAGACAACCTCCCCTTAGTTGTTAGGGTTGCATGCTTAGAACAAATATATAG
774406 AAGCATGCATGCAAGAAGAT
66 AAGCATGCATGCAAGAAGAT
774426 CGGTAACGAT
Statistics
Matches: 175, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 175 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (95 bp):
AGTGGGATTGAATAAGACAACCTCCCCTTAGTTGTTAGGGTTGCATGCTTAGAACAAATATATAG
AAGCATGCATGCAAGAAGATTTAATATAGT
Found at i:782675 original size:22 final size:22
Alignment explanation
Indices: 782649--782709 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
782639 TCGATAGAAT
*
782649 TCAATTTTAGGGTTTAGATTCA
1 TCAATTTTAGGGTTTAGATTAA
782671 TCAATTTTAGGGTTTAGATTAA
1 TCAATTTTAGGGTTTAGATTAA
782693 TCAATTTTAGGGTTTAG
1 TCAATTTTAGGGTTTAG
782710 GGGTTAAGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.46
Consensus pattern (22 bp):
TCAATTTTAGGGTTTAGATTAA
Found at i:783266 original size:23 final size:23
Alignment explanation
Indices: 783230--783282 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
783220 GAACCTGTTT
*
783230 TGCATGTACATCATGCATGCAAA
1 TGCATGCACATCATGCATGCAAA
*
783253 TGCATGCACCTCATGCATGCAAA
1 TGCATGCACATCATGCATGCAAA
783276 TGCATGC
1 TGCATGC
783283 CAAATCACGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (23 bp):
TGCATGCACATCATGCATGCAAA
Found at i:783439 original size:4 final size:4
Alignment explanation
Indices: 783430--783893 Score: 463
Period size: 4 Copynumber: 130.5 Consensus size: 4
783420 AGGAGAGGAT
783430 AAGG AAGG AA-G AAGG AAGG AA-G AAGG AAAGG AA-G AAGG AA-G AAGG
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG -AAGG AAGG AAGG AAGG AAGG
783475 AA-G AA-G AA-G AAGG AAGG AA-G AAGG AA-G AAGG AA-G AA-G AA-G
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG
783515 AAGG -A-G AAGG -A-G AAGG AA-G AAGG AA-G AAGG -AGG -AGG AA-G
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG
783554 AA-G AAGG AA-G AAGG AAGG AA-G AAGG AAGG AA-G AAGG -AGG AAGG
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG
783597 -AGG AAGG AA-G AAGG AA-G AAGG AA-G AAGG AA-G AAGG AA-G AAGG
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG
783639 AA-G AAGG AA-G AAGG AAGG AA-G AAGG AA-G AAGG AA-G AAGG AAGG
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG
*
783682 AAGG AAGG AAGG AAGG -AGG AAGG -AGG AAGG -AGG AAGG AA-G AAAG
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG
783726 AA-G AAGG AAGG AA-G AAGG -AGG AAGG AA-G AAGG AAGG -AGG AA-G
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG
783768 AAGG AAGG -AGG AA-G AAGG AAGG AAAGG AAGG AAGG AAGG AAGG AAGG
1 AAGG AAGG AAGG AAGG AAGG AAGG -AAGG AAGG AAGG AAGG AAGG AAGG
* *
783815 AA-G AAGG -AGG AAGG AA-A AAGG -AGG AAGG AA-A AAGG -AGG AAGG
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG
783857 AA-G AAGG AA-G AAGG AA-G AAGG AA-G AAGG AA-G AAGG AA
1 AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AAGG AA
783894 AGAAAGAAAA
Statistics
Matches: 400, Mismatches: 4, Indels: 112
0.78 0.01 0.22
Matches are distributed among these distances:
2 2 0.00
3 170 0.43
4 220 0.55
5 8 0.02
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (4 bp):
AAGG
Found at i:783443 original size:7 final size:7
Alignment explanation
Indices: 783430--783893 Score: 542
Period size: 7 Copynumber: 65.9 Consensus size: 7
783420 AGGAGAGGAT
783430 AAGGAAGG
1 AAGGAA-G
783438 AA-GAAGG
1 AAGGAA-G
783445 AAGGAAG
1 AAGGAAG
783452 AAGG-A-
1 AAGGAAG
783457 AAGGAAG
1 AAGGAAG
783464 AAGGAAG
1 AAGGAAG
783471 AAGGAAG
1 AAGGAAG
783478 AAGAAGAAGG
1 AAG--GAA-G
783488 AAGGAAG
1 AAGGAAG
783495 AAGGAAG
1 AAGGAAG
783502 AAGGAAG
1 AAGGAAG
783509 AA-GAAG
1 AAGGAAG
783515 AAGG-AG
1 AAGGAAG
783521 AAGG-AG
1 AAGGAAG
783527 AAGGAAG
1 AAGGAAG
783534 AAGGAAG
1 AAGGAAG
783541 AAGGAGGAGG
1 AAGGA--A-G
783551 AA-GAAG
1 AAGGAAG
783557 AAGGAAG
1 AAGGAAG
783564 AAGGAAGG
1 AAGGAA-G
783572 AA-GAAGG
1 AAGGAA-G
783579 AAGGAAG
1 AAGGAAG
*
783586 AAGGAGG
1 AAGGAAG
*
783593 AAGGAGG
1 AAGGAAG
783600 AAGGAAG
1 AAGGAAG
783607 AAGGAAG
1 AAGGAAG
783614 AAGGAAG
1 AAGGAAG
783621 AAGGAAG
1 AAGGAAG
783628 AAGGAAG
1 AAGGAAG
783635 AAGGAAG
1 AAGGAAG
783642 AAGGAAG
1 AAGGAAG
783649 AA-G--G
1 AAGGAAG
783653 AAGGAAG
1 AAGGAAG
783660 AAGGAAG
1 AAGGAAG
783667 AAGGAAG
1 AAGGAAG
783674 AAGGAAGG
1 AAGGAA-G
783682 AAGGAAGG
1 AAGGAA-G
783690 AAGGAAG
1 AAGGAAG
*
783697 GAGGAAG
1 AAGGAAG
*
783704 GAGGAAG
1 AAGGAAG
*
783711 GAGGAAGG
1 AAGGAA-G
*
783719 AAGAAAG
1 AAGGAAG
783726 AA-GAAGG
1 AAGGAA-G
783733 AAGGAAG
1 AAGGAAG
*
783740 AAGGAGG
1 AAGGAAG
783747 AAGGAAG
1 AAGGAAG
783754 AAGGAAG
1 AAGGAAG
*
783761 GAGGAAG
1 AAGGAAG
783768 AAGGAAG
1 AAGGAAG
*
783775 GAGGAAG
1 AAGGAAG
783782 AAGGAAGG
1 AAGGAA-G
*
783790 AA--AGG
1 AAGGAAG
783795 AAGGAAGG
1 AAGGAA-G
783803 AAGGAAGG
1 AAGGAA-G
783811 AAGGAAG
1 AAGGAAG
*
783818 AAGGAGG
1 AAGGAAG
*
783825 AAGGAAA
1 AAGGAAG
*
783832 AAGGAGG
1 AAGGAAG
*
783839 AAGGAAA
1 AAGGAAG
*
783846 AAGGAGG
1 AAGGAAG
783853 AAGGAAG
1 AAGGAAG
783860 AAGGAAG
1 AAGGAAG
783867 AAGGAAG
1 AAGGAAG
783874 AAGGAAG
1 AAGGAAG
783881 AAGGAAG
1 AAGGAAG
783888 AAGGAA
1 AAGGAA
783894 AGAAAGAAAA
Statistics
Matches: 407, Mismatches: 24, Indels: 51
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.01
5 8 0.02
6 27 0.07
7 301 0.74
8 55 0.14
9 6 0.01
10 7 0.02
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (7 bp):
AAGGAAG
Found at i:787457 original size:21 final size:21
Alignment explanation
Indices: 787431--787475 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
787421 GATTTCTGGG
* *
787431 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
787452 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
787473 CAA
1 CAA
787476 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:789175 original size:13 final size:13
Alignment explanation
Indices: 789157--789219 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 13
789147 TTATATGGCA
789157 CTACGGTGCAATT
1 CTACGGTGCAATT
789170 CTACGG-GC-A--
1 CTACGGTGCAATT
*
789179 CTTCGGTGCAATT
1 CTACGGTGCAATT
789192 CTACGG-GC-A--
1 CTACGGTGCAATT
*
789201 CTTCGGTGCAATT
1 CTACGGTGCAATT
789214 CTACGG
1 CTACGG
789220 GGCACTTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 10 0.26
10 4 0.11
11 4 0.11
12 4 0.11
13 16 0.42
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (13 bp):
CTACGGTGCAATT
Found at i:789185 original size:22 final size:22
Alignment explanation
Indices: 789153--789233 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
789143 ATCATTATAT
*
789153 GGCACTACGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
789175 GGCACTTCGGTGCAATTCTACG
1 GGCACTTCGGTGCAATTCTACG
789197 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTAC-G
789220 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
789234 TTTATACGAG
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 42 0.74
23 15 0.26
ACGTcount: A:0.19, C:0.27, G:0.30, T:0.25
Consensus pattern (22 bp):
GGCACTTCGGTGCAATTCTACG
Found at i:790898 original size:35 final size:35
Alignment explanation
Indices: 790852--790963 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
790842 AAAACAGTCC
* * *
790852 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCTAAAATAAT
*
790887 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCTAAAATAAT
** * *
790922 TCAATTAAATTCTAAATCCCAAATTCTAAAATACT
1 TCAATTTCATTCTAAACCCCAAATTCTAAAATAAT
790957 TCAATTT
1 TCAATTT
790964 AAGGTTTAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCTAAAATAAT
Found at i:792750 original size:35 final size:35
Alignment explanation
Indices: 792710--792821 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
792700 TCTAAACCTT
* * *
792710 AAATTGAAGTATTTTAGAATTTGGGGTTTAGAATT
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
* * *
792745 TAATTGAATTATTTTGGAATTTAGGATTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
* *
792780 AAATTGAATTACTTTGGAAATTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
792815 AAATTGA
1 AAATTGA
792822 GGATTGTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
Found at i:793291 original size:3 final size:3
Alignment explanation
Indices: 793283--793348 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
793273 TTTTATCCCA
793283 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
793331 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
793349 CCTGCAAAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:796144 original size:31 final size:31
Alignment explanation
Indices: 796073--796145 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 31
796063 CTAATATTAA
* *
796073 ATATTTTTATAATTTTAAAATAAATAATGGTAG
1 ATATATTT-TAATTTTAAAATAAATAAT-GTAC
796106 ATATATTTTAATTTTAAAATTATAATAAT-TAC
1 ATATATTTTAATTTTAAAA-TA-AATAATGTAC
796138 AT-TATTTT
1 ATATATTTT
796146 TGTTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
31 6 0.17
32 15 0.42
33 9 0.25
34 6 0.17
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (31 bp):
ATATATTTTAATTTTAAAATAAATAATGTAC
Found at i:796587 original size:40 final size:37
Alignment explanation
Indices: 796512--796590 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 37
796502 ATAAACTTTC
* *
796512 AATTTTGAACAGAGATACTTAAATGAAACAAAAACTA
1 AATTTTGAACAGAGATACTAAAATAAAACAAAAACTA
* *
796549 AATTTTGTAACAGCATGGTACTAAAATAAAACAGAAACTA
1 AATTTTG-AACAG-A-GATACTAAAATAAAACAAAAACTA
796589 AA
1 AA
796591 CTTTAGGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 7 0.20
38 5 0.14
39 1 0.03
40 22 0.63
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.24
Consensus pattern (37 bp):
AATTTTGAACAGAGATACTAAAATAAAACAAAAACTA
Found at i:797323 original size:17 final size:19
Alignment explanation
Indices: 797301--797338 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
797291 GGGATATTTA
*
797301 GTCTTTA-T-TTTGATCTC
1 GTCTTTAGTCTTTAATCTC
797318 GTCTTTAGTCTTTAATCTC
1 GTCTTTAGTCTTTAATCTC
797337 GT
1 GT
797339 TATTGCACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 10 0.56
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.55
Consensus pattern (19 bp):
GTCTTTAGTCTTTAATCTC
Found at i:797431 original size:14 final size:14
Alignment explanation
Indices: 797390--797437 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 14
797380 TTCTTCTTCT
797390 TCTTTAGTCTTTAA
1 TCTTTAGTCTTTAA
* *
797404 TC--TGGTCTCT--
1 TCTTTAGTCTTTAA
797414 TCTTTAGTCTTTAA
1 TCTTTAGTCTTTAA
797428 TCTTTAGTCT
1 TCTTTAGTCT
797438 CTGTGCCCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
10 2 0.08
12 12 0.46
14 12 0.46
ACGTcount: A:0.15, C:0.19, G:0.10, T:0.56
Consensus pattern (14 bp):
TCTTTAGTCTTTAA
Found at i:803659 original size:2 final size:2
Alignment explanation
Indices: 803647--803685 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
803637 CTTTCCGGCA
803647 AG AG TAG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG -AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
803686 GCTTGAAGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
AG
Found at i:803698 original size:7 final size:7
Alignment explanation
Indices: 803686--803710 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
803676 AGAGAGAGAG
803686 GCTTGAA
1 GCTTGAA
803693 GCTTGAA
1 GCTTGAA
803700 GCTTGAA
1 GCTTGAA
803707 GCTT
1 GCTT
803711 TTACGTGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (7 bp):
GCTTGAA
Found at i:804252 original size:2 final size:2
Alignment explanation
Indices: 804247--804274 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
804237 ATATTTTATT
804247 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
804275 ATAAACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:804763 original size:22 final size:21
Alignment explanation
Indices: 804738--804778 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
804728 ACACATATCA
*
804738 TTATTTAATTAAAAATTAAATT
1 TTATTAAATT-AAAATTAAATT
804760 TTATTAAATTAAAATTAAA
1 TTATTAAATTAAAATTAAA
804779 AGTATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTATTAAATTAAAATTAAATT
Found at i:805327 original size:60 final size:60
Alignment explanation
Indices: 805234--805376 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 60
805224 TTACATATTT
* * * ** * * * *
805234 GGATGAAATTGGAATATTTAAAAGTTTGTGGATTACTTTAGAATGAA-GGTCATAATTTAG
1 GGATGAAATTGAAATATTAAAAAGTCTAAGGATTAATTTAGAAT-AATAGTCACAATTTAA
* *
805294 GGATGAAATTGAAATGTTAAAAAGTCTAAGGATTAATTTAGAATAATAGTCACATTTTAA
1 GGATGAAATTGAAATATTAAAAAGTCTAAGGATTAATTTAGAATAATAGTCACAATTTAA
805354 GGATGAAATT-AGAATATTAAAAA
1 GGATGAAATTGA-AATATTAAAAA
805377 TTTTAGAGAC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 3 0.04
60 66 0.96
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.34
Consensus pattern (60 bp):
GGATGAAATTGAAATATTAAAAAGTCTAAGGATTAATTTAGAATAATAGTCACAATTTAA
Found at i:805411 original size:60 final size:60
Alignment explanation
Indices: 805283--805411 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 60
805273 AGAATGAAGG
* * * * * * *
805283 TCATAATTTAGGGATGAAATTGAAATGTTAAAAAGTCTAAGGATTAATTTAGAATAATAG
1 TCATATTTTAAGGATGAAATTGAAATATTAAAAAGTCTAAGGACTAATTTAAAATAAAAC
* * *
805343 TCACATTTTAAGGATGAAATT-AGAATATTAAAAA-TTTTAGAGACTAATTTAAAATAAAAC
1 TCATATTTTAAGGATGAAATTGA-AATATTAAAAAGTCTAAG-GACTAATTTAAAATAAAAC
805403 TCATATTTT
1 TCATATTTT
805412 GAAAATATAT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
59 5 0.09
60 51 0.91
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (60 bp):
TCATATTTTAAGGATGAAATTGAAATATTAAAAAGTCTAAGGACTAATTTAAAATAAAAC
Found at i:805750 original size:26 final size:26
Alignment explanation
Indices: 805714--805767 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
805704 GGCAGACCTA
805714 GATTCTTTTGTCCTACTACATGTGTG
1 GATTCTTTTGTCCTACTACATGTGTG
*
805740 GATTCTTTTGTCCTGCTACATGTGTG
1 GATTCTTTTGTCCTACTACATGTGTG
805766 GA
1 GA
805768 AAGGTTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (26 bp):
GATTCTTTTGTCCTACTACATGTGTG
Found at i:807079 original size:2 final size:2
Alignment explanation
Indices: 807065--807102 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
807055 AAGGGTCAAA
*
807065 AT AT AT -T AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
807103 ATAAGACACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:812637 original size:59 final size:59
Alignment explanation
Indices: 812528--812662 Score: 157
Period size: 59 Copynumber: 2.3 Consensus size: 59
812518 CATTTGGATG
*
812528 AATTTGGGGATGAAATTGGAAGATCTAAAAGTTTAGGGACTAATTCAGAATGAGATTCAT
1 AATTTGGGGATGAAA-TGGAAGATCTAAAAGTTTAGGGAATAATTCAGAATGAGATTCAT
* * * * *
812588 AGTTTGGGGATGAAATGGTATGTTC-AAAAGTTT-GAGGAATAATTTAGAATGATATTCAT
1 AATTTGGGGATGAAATGG-AAGATCTAAAAGTTTAG-GGAATAATTCAGAATGAGATTCAT
**
812647 AATTTAAGGATGAAAT
1 AATTTGGGGATGAAAT
812663 TGAAATATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
58 1 0.02
59 45 0.70
60 18 0.28
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (59 bp):
AATTTGGGGATGAAATGGAAGATCTAAAAGTTTAGGGAATAATTCAGAATGAGATTCAT
Found at i:815473 original size:20 final size:20
Alignment explanation
Indices: 815448--815528 Score: 117
Period size: 20 Copynumber: 4.0 Consensus size: 20
815438 ACTGATATAA
815448 GTAAACAGTATTATCGCAAT
1 GTAAACAGTATTATCGCAAT
* *
815468 GTAAACAGTAATATCGTAAT
1 GTAAACAGTATTATCGCAAT
*
815488 GTGAACAGTATTATCGCAAT
1 GTAAACAGTATTATCGCAAT
* *
815508 GTAAACAATACTATCGCAAT
1 GTAAACAGTATTATCGCAAT
815528 G
1 G
815529 CGGTTTTCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (20 bp):
GTAAACAGTATTATCGCAAT
Found at i:815495 original size:40 final size:40
Alignment explanation
Indices: 815451--815528 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
815441 GATATAAGTA
* *
815451 AACAGTATTATCGCAATGTAAACAGTAATATCGTAATGTG
1 AACAGTATTATCGCAATGTAAACAATAATATCGCAATGTG
*
815491 AACAGTATTATCGCAATGTAAACAATACTATCGCAATG
1 AACAGTATTATCGCAATGTAAACAATAATATCGCAATG
815529 CGGTTTTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (40 bp):
AACAGTATTATCGCAATGTAAACAATAATATCGCAATGTG
Found at i:815621 original size:20 final size:20
Alignment explanation
Indices: 815592--815675 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
815582 AACGCGAATT
815592 TTTG-AAACTGAGTTGCGAA
1 TTTGAAAACTGAGTTGCGAA
* * **
815611 TTTGAAAACTGTGTTGTGGT
1 TTTGAAAACTGAGTTGCGAA
*
815631 TTTGAAAA-TCGCGTTGCG-A
1 TTTGAAAACT-GAGTTGCGAA
*
815650 TTTGAAACCTGTA-TTGCGAA
1 TTTGAAAACTG-AGTTGCGAA
*
815670 ATTGAA
1 TTTGAA
815676 GTTCGCTTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
19 18 0.36
20 32 0.64
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.36
Consensus pattern (20 bp):
TTTGAAAACTGAGTTGCGAA
Found at i:817115 original size:14 final size:14
Alignment explanation
Indices: 817093--817151 Score: 91
Period size: 14 Copynumber: 4.2 Consensus size: 14
817083 TCGATAATAT
817093 GTTCGTTTATATTC
1 GTTCGTTTATATTC
*
817107 GTTCATTTATATTC
1 GTTCGTTTATATTC
*
817121 GTTCGTTTATGTTC
1 GTTCGTTTATATTC
*
817135 GTTCGTTTATGTTC
1 GTTCGTTTATATTC
817149 GTT
1 GTT
817152 TATGTGCGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.12, C:0.14, G:0.17, T:0.58
Consensus pattern (14 bp):
GTTCGTTTATATTC
Found at i:817136 original size:10 final size:10
Alignment explanation
Indices: 817135--817173 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
817125 GTTTATGTTC
817135 GTTCGTTTAT
1 GTTCGTTTAT
817145 GTTCGTTTAT
1 GTTCGTTTAT
*
817155 GTGCGTTTAT
1 GTTCGTTTAT
817165 -TTACGTTTA
1 GTT-CGTTTA
817174 GCCTAATCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 1 0.04
10 25 0.96
ACGTcount: A:0.13, C:0.10, G:0.21, T:0.56
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:817167 original size:24 final size:24
Alignment explanation
Indices: 817090--817167 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 24
817080 CGTTCGATAA
* *
817090 TATGTTCGTTTATATTCGTTCATTT
1 TATGTTCGTTTATGTGCGTTCA-TT
* *
817115 ATATTCGTTCGTTTATGTTCGTTCGTT
1 -TA-T-GTTCGTTTATGTGCGTTCATT
*
817142 TATGTTCGTTTATGTGCGTTTATT
1 TATGTTCGTTTATGTGCGTTCATT
817166 TA
1 TA
817168 CGTTTAGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 20 0.44
25 1 0.02
26 4 0.09
27 3 0.07
28 17 0.38
ACGTcount: A:0.14, C:0.12, G:0.17, T:0.58
Consensus pattern (24 bp):
TATGTTCGTTTATGTGCGTTCATT
Found at i:817361 original size:20 final size:20
Alignment explanation
Indices: 817336--817373 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
817326 AAAAAATATT
* *
817336 TTCATTTATGTTTGTTTACG
1 TTCATTTACGTTCGTTTACG
817356 TTCATTTACGTTCGTTTA
1 TTCATTTACGTTCGTTTA
817374 TTGTATTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.58
Consensus pattern (20 bp):
TTCATTTACGTTCGTTTACG
Found at i:817392 original size:10 final size:10
Alignment explanation
Indices: 817340--817396 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
817330 AATATTTTCA
*
817340 TTTATGTTTG
1 TTTATGTTCG
* *
817350 TTTACGTTCA
1 TTTATGTTCG
*
817360 TTTACGTTCG
1 TTTATGTTCG
817370 TTTATTGTATTCG
1 TTTA-TG--TTCG
817383 TTTATGTTCG
1 TTTATGTTCG
817393 TTTA
1 TTTA
817397 CATCCATTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 28 0.72
11 1 0.03
12 2 0.05
13 8 0.21
ACGTcount: A:0.14, C:0.11, G:0.16, T:0.60
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:817445 original size:14 final size:14
Alignment explanation
Indices: 817426--817467 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
817416 GTTTAGGTTC
817426 GTTTATGTTCGTTT
1 GTTTATGTTCGTTT
*
817440 GTTTATGTTCGTTC
1 GTTTATGTTCGTTT
* *
817454 ATTTGTGTTCGTTT
1 GTTTATGTTCGTTT
817468 ATCATTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.07, C:0.10, G:0.21, T:0.62
Consensus pattern (14 bp):
GTTTATGTTCGTTT
Found at i:817467 original size:24 final size:23
Alignment explanation
Indices: 817407--817469 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
817397 CATCCATTAG
* *
817407 TTTGTGATTGTTTAGGTTCGTTTA
1 TTTGTG-TTGTTTATGTTCGTTCA
817431 TGTTCGT-TTGTTTATGTTCGTTCA
1 T-TT-GTGTTGTTTATGTTCGTTCA
817455 TTTGTGTTCGTTTAT
1 TTTGTGTT-GTTTAT
817470 CATTTAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
22 2 0.06
23 4 0.12
24 23 0.70
25 2 0.06
26 2 0.06
ACGTcount: A:0.10, C:0.08, G:0.22, T:0.60
Consensus pattern (23 bp):
TTTGTGTTGTTTATGTTCGTTCA
Found at i:823673 original size:43 final size:43
Alignment explanation
Indices: 823609--823717 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
823599 GACTCAAAAC
* * *
823609 TTGCGGCGTTTGTATTTAAAAATGCCACTAATGTACT-AGTATA
1 TTGCGGCGTTTGTATTTAAAAATGCCACCAATGCACTGA-CATA
* **
823652 TTGCGGCGTTTGTATTCAAAAACACCACCAATGCACTGACATA
1 TTGCGGCGTTTGTATTTAAAAATGCCACCAATGCACTGACATA
823695 TTGCGGCGTTTGT-TTTAAAAATG
1 TTGCGGCGTTTGTATTTAAAAATG
823718 TCACAAAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
42 7 0.12
43 48 0.86
44 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (43 bp):
TTGCGGCGTTTGTATTTAAAAATGCCACCAATGCACTGACATA
Found at i:823904 original size:124 final size:123
Alignment explanation
Indices: 823752--824042 Score: 325
Period size: 124 Copynumber: 2.3 Consensus size: 123
823742 TGTTACAGGT
* * *
823752 AAAATGCTGCTAATATTACCAATTTGTGGCGTTTGT-TTTAAAAAACGCCACTAATGCACTGACC
1 AAAATGCCGCTAATGTTACCATTTTGTGGCGTTTGTATTT-AAAAACGCCACTAATGCACTGACC
823816 TATTGCAT-CATTTATTTAAAAAAACACCACAAAAAACAAGGCTACAACGACGCTTATAGA
65 TATTGC-TGCATTTATTT-AAAAAACACCACAAAAAACAAGGCTACAACGACGCTTATAGA
* * * *
823876 AAAATGCCACTAATGTTACCATTTTGTGGCATTTGTATTTAAAAACGCCACTAATGCATTGATCT
1 AAAATGCCGCTAATGTTACCATTTTGTGGCGTTTGTATTTAAAAACGCCACTAATGCACTGACCT
** * ** * ** * * ** *
823941 ATTGCTGTGTTTGTTTAAAAAATGCCACAAAAGATGAGGTTATAGTGACGTTTATAGA
66 ATTGCTGCATTTATTTAAAAAACACCACAAAAAACAAGGCTACAACGACGCTTATAGA
* * *
823999 AAAATGTCGCTAATGTTACTATTTTGTGGCGTTTAGGATTTAAA
1 AAAATGCCGCTAATGTTACCATTTTGTGGCGTTT-GTATTTAAA
824043 CGTTGTTATA
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
123 63 0.45
124 73 0.53
125 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (123 bp):
AAAATGCCGCTAATGTTACCATTTTGTGGCGTTTGTATTTAAAAACGCCACTAATGCACTGACCT
ATTGCTGCATTTATTTAAAAAACACCACAAAAAACAAGGCTACAACGACGCTTATAGA
Found at i:824028 original size:123 final size:119
Alignment explanation
Indices: 823656--824042 Score: 357
Period size: 123 Copynumber: 3.1 Consensus size: 119
823646 AGTATATTGC
* * * * * *
823656 GGCGTTTGTATTCAAAAACACCACCAATGCACTGACATATTGCGGCGTTTGTTTTAAAAATGTCA
1 GGCGTTTGTATTTAAAAACGCCACTAATGCACTGAC-TATTGCTGCGTTTGTTTAAAAAATGCCA
* * * * *
823721 CAAAAGATGA-GTATATAACAGTGTTACAGGTAAAATGCTGCTAATATTACCAATTTGT
65 CAAAAGATGAGGTATATGAC-GT-TTATA-GAAAAATGC-GCTAATGTTACCATTTTGT
* * **
823779 GGCGTTTGT-TTTAAAAAACGCCACTAATGCACTGACCTATTGCAT-CATTTATTTAAAAAAACA
1 GGCGTTTGTATTT-AAAAACGCCACTAATGCACTGA-CTATTGC-TGCGTTTGTTT-AAAAAATG
* ** * * * *
823842 CCACAAAAAACAAGGCTACAACGACGCTTATAGAAAAATGCCACTAATGTTACCATTTTGT
62 CCACAAAAGATGAGG-TA-TATGACGTTTATAGAAAAATG-CGCTAATGTTACCATTTTGT
* * *
823903 GGCATTTGTATTTAAAAACGCCACTAATGCATTGATCTATTGCTGTGTTTGTTTAAAAAATGCCA
1 GGCGTTTGTATTTAAAAACGCCACTAATGCACTGA-CTATTGCTGCGTTTGTTTAAAAAATGCCA
*
823968 CAAAAGATGAGGTTATAGTGACGTTTATAGAAAAATGTCGCTAATGTTACTATTTTGT
65 CAAAAGATGAGG-TATA-TGACGTTTATAGAAAAATG-CGCTAATGTTACCATTTTGT
*
824026 GGCGTTTAGGATTTAAA
1 GGCGTTT-GTATTTAAA
824043 CGTTGTTATA
Statistics
Matches: 210, Mismatches: 42, Indels: 23
0.76 0.15 0.08
Matches are distributed among these distances:
122 3 0.01
123 104 0.50
124 88 0.42
125 9 0.04
126 3 0.01
127 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (119 bp):
GGCGTTTGTATTTAAAAACGCCACTAATGCACTGACTATTGCTGCGTTTGTTTAAAAAATGCCAC
AAAAGATGAGGTATATGACGTTTATAGAAAAATGCGCTAATGTTACCATTTTGT
Found at i:824212 original size:3 final size:3
Alignment explanation
Indices: 824204--824233 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
824194 ATTAAAATTT
824204 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
824234 GGCTTAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:827741 original size:25 final size:25
Alignment explanation
Indices: 827719--827766 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
827709 AAAATTTATA
*
827719 ACAC-ATAAATAGATATTTCTTTAAC
1 ACACAATAAATAAATATTT-TTTAAC
*
827744 TCACAATAAATAAATATTTTTTA
1 ACACAATAAATAAATATTTTTTA
827767 GGGTTGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (25 bp):
ACACAATAAATAAATATTTTTTAAC
Found at i:827799 original size:20 final size:22
Alignment explanation
Indices: 827776--827819 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
827766 AGGGTTGGGG
827776 TTTAGAATTTAGG-TTTA-AGA
1 TTTAGAATTTAGGATTTAGAGA
**
827796 TTTAGGGTTTAGGATTTAGAGA
1 TTTAGAATTTAGGATTTAGAGA
827818 TT
1 TT
827820 AAAATTCGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 4 0.20
22 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (22 bp):
TTTAGAATTTAGGATTTAGAGA
Found at i:827806 original size:14 final size:14
Alignment explanation
Indices: 827773--827814 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
827763 TTTAGGGTTG
827773 GGGTTT-AGAATTTA
1 GGGTTTAAG-ATTTA
827787 -GGTTTAAGATTTA
1 GGGTTTAAGATTTA
*
827800 GGGTTTAGGATTTA
1 GGGTTTAAGATTTA
827814 G
1 G
827815 AGATTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (14 bp):
GGGTTTAAGATTTA
Found at i:827830 original size:27 final size:27
Alignment explanation
Indices: 827773--827832 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
827763 TTTAGGGTTG
* *
827773 GGGTTTAGAATTTAGGTTTAAGATTTA
1 GGGTTTAGAATTTAGGATTAAGAATTA
* *
827800 GGGTTTAGGATTTAGAGATTAA-AATTC
1 GGGTTTAGAATTTAG-GATTAAGAATTA
827827 GGGTTT
1 GGGTTT
827833 GATATAGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (27 bp):
GGGTTTAGAATTTAGGATTAAGAATTA
Found at i:827983 original size:31 final size:31
Alignment explanation
Indices: 827948--828008 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
827938 AAACTAAACT
*
827948 CGATTTGAAAATTCACAACTATAAAATTGGC
1 CGATTTGAAAATTCACAAATATAAAATTGGC
827979 CGATTTGAAAATTCACAAATATAAAATTGG
1 CGATTTGAAAATTCACAAATATAAAATTGG
828009 TAAGCTCGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (31 bp):
CGATTTGAAAATTCACAAATATAAAATTGGC
Found at i:828507 original size:2 final size:2
Alignment explanation
Indices: 828500--828525 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
828490 TGATTATAAC
828500 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
828526 TAATCATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:828599 original size:25 final size:25
Alignment explanation
Indices: 828577--828624 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
828567 AAAATTTATA
*
828577 ACAC-ATAAATAGATATTTCTTTAAC
1 ACACAATAAATAAATATTT-TTTAAC
*
828602 TCACAATAAATAAATATTTTTTA
1 ACACAATAAATAAATATTTTTTA
828625 GGGTTGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (25 bp):
ACACAATAAATAAATATTTTTTAAC
Found at i:828833 original size:15 final size:15
Alignment explanation
Indices: 828813--828864 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
828803 ACTCGATTTG
828813 AAAATTCACAAATAT
1 AAAATTCACAAATAT
** ** *
828828 AAAATTGGCCGATTT
1 AAAATTCACAAATAT
828843 GAAAATTCACAAATAT
1 -AAAATTCACAAATAT
828859 AAAATT
1 AAAATT
828865 GGTACGCTCG
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (15 bp):
AAAATTCACAAATAT
Found at i:828841 original size:31 final size:31
Alignment explanation
Indices: 828806--828866 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
828796 AAACTAAACT
828806 CGATTTGAAAATTCACAAATATAAAATTGGC
1 CGATTTGAAAATTCACAAATATAAAATTGGC
828837 CGATTTGAAAATTCACAAATATAAAATTGG
1 CGATTTGAAAATTCACAAATATAAAATTGG
828867 TACGCTCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (31 bp):
CGATTTGAAAATTCACAAATATAAAATTGGC
Found at i:829449 original size:25 final size:25
Alignment explanation
Indices: 829427--829474 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
829417 AAAATTTATA
*
829427 ACAC-ATAAATAGATATTTCTTTAAC
1 ACACAATAAATAAATATTT-TTTAAC
*
829452 TCACAATAAATAAATATTTTTTA
1 ACACAATAAATAAATATTTTTTA
829475 GGGTTGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (25 bp):
ACACAATAAATAAATATTTTTTAAC
Found at i:829683 original size:15 final size:15
Alignment explanation
Indices: 829663--829714 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
829653 ACTCGATTTG
829663 AAAATTCACAAATAT
1 AAAATTCACAAATAT
** ** *
829678 AAAATTGGCCGATTT
1 AAAATTCACAAATAT
829693 GAAAATTCACAAATAT
1 -AAAATTCACAAATAT
829709 AAAATT
1 AAAATT
829715 GGTAAGCTCG
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (15 bp):
AAAATTCACAAATAT
Found at i:829691 original size:31 final size:31
Alignment explanation
Indices: 829656--829716 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
829646 AAACTAAACT
829656 CGATTTGAAAATTCACAAATATAAAATTGGC
1 CGATTTGAAAATTCACAAATATAAAATTGGC
829687 CGATTTGAAAATTCACAAATATAAAATTGG
1 CGATTTGAAAATTCACAAATATAAAATTGG
829717 TAAGCTCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (31 bp):
CGATTTGAAAATTCACAAATATAAAATTGGC
Found at i:829795 original size:850 final size:849
Alignment explanation
Indices: 827133--831844 Score: 7999
Period size: 858 Copynumber: 5.6 Consensus size: 849
827123 AAACTAAACT
827133 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
* * *
827198 GCTCGACTCGACTAAAAAACTTACAAGCTTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
66 GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
*
827263 AGCTCGACTTGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTTT
131 AGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATC----TTTTT
*
827328 TTTAAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTT-AAAAATCTAAAATTTC
192 TTTAAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTC
827392 AATATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGAC
257 AATATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGAC
827457 TTGTTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTGC-TGTCTGAG
322 TTGTTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGT-CTTGTCTGAG
*
827521 CTTTGACCGAGCCAATCTTAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGA
386 CTTTGACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGA
*
827586 TGTTGATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTGATGA-T
451 TGTTGATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATT
827650 -T---A-ATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTA
516 ATAACATATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTA
827710 AAATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGG
581 AAATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGG
* *
827775 GTTTAGAATTTAGGTTTAAGATTTAGGGTTTAGGATTTAGAGATTAAAATTCGGGTTTGATATAG
646 GTTTAGAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAG
*
827840 AGGTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGATTCGAGTTCGTG
711 AGGTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTG
* *
827905 TATTATTGAGTTTGACTCGACTCAAGTATTTTAAAACTAAACTCGATTTGAAAATTCACAACTAT
776 TATTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATAT
827970 AAAATTGGC
841 AAAATTGGC
*
827979 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGGCTCGAACTTGAAATAAAAAAAACTGA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAAT-AAAAAAACTGA
*
828044 AGCTCGACTCGACTCAAAAGATTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAG
65 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAG
828109 AAGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTT
130 AAGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTT
* *
828174 AAAAAAATAGCATATAAATGTCAATATTATTACTAATTTAATTTTAAAAAATCTGAAATTTCAAT
195 AAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAAT
828239 ATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTG
260 ATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTG
828304 TTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
325 TTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
* *
828369 GACCGAGCCAATCTTAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATATT
390 GACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTT
828434 GATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAA
455 GATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAA
*
828499 CATATATATATATATATATATATATATTAATCATCATATTTAAATAAATAAATGACTTGGATTTA
520 C--------ATATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTA
828564 ATTAAAATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGT
577 ATTAAAATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGT
*
828629 TGGGGTTTAGAATTTAGATTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGAT
642 TGGGGTTTAGAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGAT
828694 ATAGAGGTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTT
707 ATAGAGGTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTT
828759 CGTGTATTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAA
772 CGTGTATTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAA
828824 ATATAAAATTGGC
837 ATATAAAATTGGC
*
828837 CGATTTGAAAATTCACAAATATAAAATTGGTACGCTCGACTCGAACTTGAAATAAAAAAAACTGA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAAT-AAAAAAACTGA
*
828902 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATATTTAAATTCCACTCGAAATAAAATATAG
65 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAG
*
828967 AAGCTCGACTCGAATAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTT
130 AAGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTT
*
829032 AAAAAAATAGCATATAAATGTTAATATTATGAATAATTTAATTTTAAAAAATCTGAAATTTCAAT
195 AAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAAT
829097 ATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTG
260 ATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTG
829162 TTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
325 TTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
* *
829227 GACCGAGCCAATCTTAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATATT
390 GACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTT
829292 GATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAA
455 GATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAA
*
829357 CATATATATATATATATATTAATCATCATATTTAAATAAATAAATGACTTGGATTTAATTAAAAT
520 CATATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTAAAAT
829422 TTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGTTT
585 TTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGTTT
*
829487 AGAATTTAGATTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAGGT
650 AGAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAGGT
829552 TTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTATT
715 TTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTATT
829617 ATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAAAA
780 ATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAAAA
829682 TTGGC
845 TTGGC
829687 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAAACTGA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAAT-AAAAAAACTGA
*
829752 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATATTTAAATTCCACTCGAAATAAAATATAG
65 AGCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAG
*
829817 AAGCTCGACTCGAATAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTT
130 AAGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATC-TTTTTTT
*
829882 TAAAAAAAATAGCATATAAATGTTAATATTATGAATAATTTAATTTTAAAAAATCTGAAATTTCA
194 T-AAAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCA
*
829947 ATATATTGTTTTTTCAAGTAGCTCGAGAGTTTTTCGAATCGAGTATCAAGTAGCTCGCTTCGACT
258 ATATATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACT
* *
830012 TGTTAAGAATTCGAGTTGAATTTGAGCTCGACTTAAGTCCATTTGATTCAAGTGTTGTCTGAGCT
323 TGTTAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCT
830077 TTGACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGT-TCAATTACAATCCTAATTAGGATG
388 TTGACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATG
830141 TTGATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTAT
453 TTGATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTAT
*
830206 AAC----------ATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGTTTTAATTAAA
518 AACATATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTAAA
830261 ATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGT
583 ATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGT
*
830326 TTAGAATTTAGGTTTAAAATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAG
648 TTAGAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAG
830391 GTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTA
713 GTTTTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTA
830456 TTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAA
778 TTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAA
830521 AATTGGC
843 AATTGGC
830528 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
830593 GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
66 GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
*
830658 AGCTCGAATCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTAT-TTTTTTTT-
131 AGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTTA
830721 -AAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
196 AAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
*
830785 TATTGTTTTTTCAAGTAGCTCGAGAGTTTTTCGAATCGAGTATCAAGTAGCTCGCTTCGACTTGT
261 TATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTGT
*
830850 TAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTGTTGTCTGAGCTTTG
326 TAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTTG
* * *
830915 ACCGAGTCAATCTCAAGTAACTCACGATATGTTTCGTCTCAATTATAATCCTAATTAGGATGTTG
391 ACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTTG
830980 ATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAAC
456 ATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAAC
831045 ATATATATATATATATATATATATATATATATATATATTAATCATCAGATTTAAATAAATAAATG
521 --------------------ATATATATATATATATATTAATCATCAGATTTAAATAAATAAATG
* * *
831110 AGTTGTATTTAATTAAAATTTATAACACATAAATAGATAATTCTTTAACTCACAATAAATAAATA
566 ACTTGGATTTAATTAAAATTTATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATA
*
831175 TTTTTTAGGGTTGGGGTTTAGAATTTAGGTTTAAGATTTAGGGGTTAGGTTTTAGAGTTTAAAAT
631 TTTTTTAGGGTTGGGGTTTAGAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAAT
* * *
831240 TTGAGGTTTGAGATAGAGGTTTTAGATTTGTCTTTTTTTTTTCAAATTAGTTAGGGTTATGTCCG
696 TCG-GGTTTGATATAGAGGTTTTAGATTTGTC---TTTTTTTCAAATTAGTTAGGGTTATGTCTG
831305 TAAACGAGTCGAGTTCGTGTATTATTGAGTTTGACTCGACTCAAATATTTT---A--AAA--C--
757 TAAACGAGTCGAGTTCGTGTATTATTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGA
831361 --T---AA---AC-----------T---
822 TTTGAAAATTCACAAATATAAAATTGGC
*
831367 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTTGACTCGAACTTGAAATAAAAAAACTGAA
1 CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
* *
831432 GCTCGACTCGACTCAAAAGCTTACAAGCTTAAAATTTTTAAACTCCACTCGAAATAAAATATAGA
66 GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
* *
831497 AGCTCGACTTGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTAT-TTGTTTTTA
131 AGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTTA
*
831561 AAAATA-AG-ATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
196 AAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
* * * * *
831624 TATTATTTTTTCAACTAGCTCGAGAGTTTTCCAAATCGAGTATCAAGTAGCTCGCTTCGGCTCGT
261 TATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTGT
* * * * *
831689 TAAGAACTCGAGTTAAGTTTGAGCTCGA-TTCAAGTCCATTTGATTCGAGTGTTATCTGAGCTTT
326 TAAGAATTCGAGTTGAGTTTGAGCTCGACTT-AAGTCCATTTGATTCAAGTCTTGTCTGAGCTTT
* ** * * *
831753 GACCGAGTCAATCTCAAGTAACTCATAATCTGTCTCGTATCAATTACAATCCTAATTAGGACGTT
390 GACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTT
831818 GATTTAGGATCAATGAATAAGTATATA
455 GATTTAGGATCAATGAATAAGTATATA
831845 TATATATATA
Statistics
Matches: 3732, Mismatches: 77, Indels: 121
0.95 0.02 0.03
Matches are distributed among these distances:
835 227 0.06
836 91 0.02
838 10 0.00
839 443 0.12
840 131 0.04
841 372 0.10
842 1 0.00
843 52 0.01
844 268 0.07
845 1 0.00
846 53 0.01
847 128 0.03
850 515 0.14
851 99 0.03
852 229 0.06
853 2 0.00
856 2 0.00
857 1 0.00
858 833 0.22
859 1 0.00
863 1 0.00
865 3 0.00
866 161 0.04
867 28 0.01
870 80 0.02
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (849 bp):
CGATTTGAAAATTCACAAATATAAAATTGGTAAGCTCGACTCGAACTTGAAATAAAAAAACTGAA
GCTCGACTCGACTCAAAAGCTTACAAGATTAAAATTTTTAAATTCCACTCGAAATAAAATATAGA
AGCTCGACTCGAACAATAACCCTAGTTCTAAGTACATGAAAGCATTATATTGTATCTTTTTTTTA
AAAAAATAGCATATAAATGTTAATATTATTAATAATTTAATTTTAAAAAATCTGAAATTTCAATA
TATTGTTTTTTCAAGTAGCTCGAGAGTTTTCCGAATCGAGTATCAAGTAGCTCGCTTCGACTTGT
TAAGAATTCGAGTTGAGTTTGAGCTCGACTTAAGTCCATTTGATTCAAGTCTTGTCTGAGCTTTG
ACCGAGCCAATCTCAAGTAACTCACGATATGTCTCGTCTCAATTACAATCCTAATTAGGATGTTG
ATTTAGGATCAATGAATAAGTATATAATCCAAGTCATTTATTTATTTAAATCTAATGATTATAAC
ATATATATATATATATATTAATCATCAGATTTAAATAAATAAATGACTTGGATTTAATTAAAATT
TATAACACATAAATAGATATTTCTTTAACTCACAATAAATAAATATTTTTTAGGGTTGGGGTTTA
GAATTTAGGTTTAAGATTTAGGGGTTAGGATTTAGAGTTTAAAATTCGGGTTTGATATAGAGGTT
TTAGATTTGTCTTTTTTTCAAATTAGTTAGGGTTATGTCTGTAAACGAGTCGAGTTCGTGTATTA
TTGAGTTTGACTCGACTCAAATATTTTAAAACTAAACTCGATTTGAAAATTCACAAATATAAAAT
TGGC
Found at i:830290 original size:25 final size:25
Alignment explanation
Indices: 830268--830315 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
830258 AAAATTTATA
*
830268 ACAC-ATAAATAGATATTTCTTTAAC
1 ACACAATAAATAAATATTT-TTTAAC
*
830293 TCACAATAAATAAATATTTTTTA
1 ACACAATAAATAAATATTTTTTA
830316 GGGTTGGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (25 bp):
ACACAATAAATAAATATTTTTTAAC
Found at i:830339 original size:13 final size:13
Alignment explanation
Indices: 830323--830374 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
830313 TTAGGGTTGG
*
830323 GGTTTAGAATTTA
1 GGTTTAAAATTTA
830336 GGTTTAAAATTTA
1 GGTTTAAAATTTA
* **
830349 GGGGTTAGGATTTA
1 -GGTTTAAAATTTA
830363 GAGTTTAAAATT
1 G-GTTTAAAATT
830375 CGGGTTTGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 13 0.43
14 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (13 bp):
GGTTTAAAATTTA
Found at i:830353 original size:28 final size:28
Alignment explanation
Indices: 830321--830374 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
830311 TTTTAGGGTT
830321 GGGGTTTAGAATTTAG-GTTTAAAATTTA
1 GGGG-TTAGAATTTAGAGTTTAAAATTTA
*
830349 GGGGTTAGGATTTAGAGTTTAAAATT
1 GGGGTTAGAATTTAGAGTTTAAAATT
830375 CGGGTTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (28 bp):
GGGGTTAGAATTTAGAGTTTAAAATTTA
Found at i:830524 original size:15 final size:15
Alignment explanation
Indices: 830504--830555 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
830494 ACTCGATTTG
830504 AAAATTCACAAATAT
1 AAAATTCACAAATAT
** ** *
830519 AAAATTGGCCGATTT
1 AAAATTCACAAATAT
830534 GAAAATTCACAAATAT
1 -AAAATTCACAAATAT
830550 AAAATT
1 AAAATT
830556 GGTAAGCTCG
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (15 bp):
AAAATTCACAAATAT
Found at i:830532 original size:31 final size:31
Alignment explanation
Indices: 830497--830557 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
830487 AAACTAAACT
830497 CGATTTGAAAATTCACAAATATAAAATTGGC
1 CGATTTGAAAATTCACAAATATAAAATTGGC
830528 CGATTTGAAAATTCACAAATATAAAATTGG
1 CGATTTGAAAATTCACAAATATAAAATTGG
830558 TAAGCTCGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (31 bp):
CGATTTGAAAATTCACAAATATAAAATTGGC
Found at i:831052 original size:2 final size:2
Alignment explanation
Indices: 831045--831082 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
831035 TGATTATAAC
831045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
831083 TAATCATCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:831214 original size:20 final size:20
Alignment explanation
Indices: 831191--831253 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
831181 AGGGTTGGGG
831191 TTTAGAATTTAGGTTTAAGA
1 TTTAGAATTTAGGTTTAAGA
*** *
831211 TTTAGGGGTTAGGTTTTAGA
1 TTTAGAATTTAGGTTTAAGA
* *
831231 GTTTAAAATTTGAGGTTTGAGA
1 -TTTAGAATTT-AGGTTTAAGA
831253 T
1 T
831254 AGAGGTTTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 16 0.50
21 7 0.22
22 9 0.28
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (20 bp):
TTTAGAATTTAGGTTTAAGA
Found at i:832832 original size:17 final size:17
Alignment explanation
Indices: 832812--832844 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
832802 ATATTTACTT
832812 ATAT-AAAATATAATATA
1 ATATGAAAA-ATAATATA
832829 ATATGAAAAATAATAT
1 ATATGAAAAATAATAT
832845 TATGCCTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATGAAAAATAATATA
Found at i:833860 original size:20 final size:21
Alignment explanation
Indices: 833827--833866 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
833817 CAAAAAAACA
* *
833827 TTACCCAAAGTATT-ATTTTT
1 TTACCAAAAATATTAATTTTT
833847 TTACCAAAAATATTAATTTT
1 TTACCAAAAATATTAATTTT
833867 ACTAACTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (21 bp):
TTACCAAAAATATTAATTTTT
Found at i:833981 original size:25 final size:25
Alignment explanation
Indices: 833942--834011 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
833932 TTTTACCGAA
833942 AATATTAAACATTTTAGGTAGAGTCC
1 AATATT-AACATTTTAGGTAGAGTCC
833968 AATATTAACATTTTAGGTAGAGTCC
1 AATATTAACATTTTAGGTAGAGTCC
* *
833993 AATATTAATATTTTCGGTA
1 AATATTAACATTTTAGGTA
834012 AAAAAATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 36 0.86
26 6 0.14
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (25 bp):
AATATTAACATTTTAGGTAGAGTCC
Found at i:834555 original size:21 final size:22
Alignment explanation
Indices: 834521--834566 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
834511 ATAATTTTGA
*
834521 AAAAAGTGAAAGTTTAGGTACT
1 AAAAAGTGAAAGTTTAGATACT
*
834543 AAAAA-TGATAGTTTAGATACT
1 AAAAAGTGAAAGTTTAGATACT
834564 AAA
1 AAA
834567 CGCGTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.28
Consensus pattern (22 bp):
AAAAAGTGAAAGTTTAGATACT
Found at i:834589 original size:3 final size:3
Alignment explanation
Indices: 834581--834610 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
834571 TAATTTACTC
834581 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
834611 CTACTAGGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:838275 original size:32 final size:32
Alignment explanation
Indices: 838225--838333 Score: 94
Period size: 32 Copynumber: 3.4 Consensus size: 32
838215 ATAGTATGAT
* * * *
838225 ATATGTCAAATCACTTAAAATGATAATATAAT
1 ATATATCATATCATTTAAAATGATAATATAAC
* * *
838257 ATATATCATATCGTTTAAAA-CATTAATGTAAC
1 ATATATCATATCATTTAAAATGA-TAATATAAC
* * * *
838289 ATATTTCATTTCATTTAAAATGATGACATAAC
1 ATATATCATATCATTTAAAATGATAATATAAC
*
838321 ATATATTATATCA
1 ATATATCATATCA
838334 CTCGAAATGA
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
31 1 0.02
32 56 0.97
33 1 0.02
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.39
Consensus pattern (32 bp):
ATATATCATATCATTTAAAATGATAATATAAC
Found at i:844365 original size:16 final size:16
Alignment explanation
Indices: 844347--844376 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
844337 TAAAATAAAA
844347 AAAATAT-TAAATTAT
1 AAAATATATAAATTAT
844362 AAAATATATAAATTA
1 AAAATATATAAATTA
844377 ATAGCCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATATATAAATTAT
Found at i:846293 original size:13 final size:14
Alignment explanation
Indices: 846229--846293 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
846219 CTTAGACCTC
*
846229 AAACCCTAAATCAT
1 AAACCCTAAATCTT
*
846243 AAAGCCTAAA-CTCT
1 AAACCCTAAATCT-T
* * *
846257 AAAGCTTACATCTT
1 AAACCCTAAATCTT
*
846271 AAACCTTAAATCTT
1 AAACCCTAAATCTT
846285 -AACCCTAAA
1 AAACCCTAAA
846294 AAATATTCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
13 9 0.21
14 31 0.74
15 2 0.05
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (14 bp):
AAACCCTAAATCTT
Found at i:846655 original size:35 final size:33
Alignment explanation
Indices: 846610--846698 Score: 90
Period size: 35 Copynumber: 2.6 Consensus size: 33
846600 ACTTAAAACT
*
846610 CTAAATTCTAAACCCTAAACTATAAACCATAACC
1 CTAAACTCTAAACCCTAAACT-TAAACCATAACC
* * *
846644 CTAAACCTCTAAACTACAAAACTTAAACCCTAACC
1 CTAAA-CTCTAAAC-CCTAAACTTAAACCATAACC
*
846679 CTTAACT-TAAAACCCTAAAC
1 CTAAACTCT-AAACCCTAAAC
846699 AATAGTAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
33 6 0.13
34 11 0.24
35 22 0.49
36 6 0.13
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (33 bp):
CTAAACTCTAAACCCTAAACTTAAACCATAACC
Found at i:849290 original size:100 final size:100
Alignment explanation
Indices: 849119--849360 Score: 325
Period size: 100 Copynumber: 2.5 Consensus size: 100
849109 CACCCAAATA
* *
849119 GGGCATTTCCCCCCCTAAAATTAAATGTT----G-GGGGCAAAATGCTGAAAGAAAAAAAAAAGA
1 GGGCATTTCCCCCCCTAAAATTAAACGTTGGGGGAGGGGCAAAATGCTAAAAGAAAAAAAAAAGA
*
849179 ATAAGGATCAAAATGGCTATTCTGTCAAATGTTAG
66 ATAAGGATCAAAATGACTATTCTGTCAAATGTTAG
849214 GGGCATTTCCCCCCCTAAAATTAAACGTTGGGGGAGGGGCAAAATGCTAAATAG-AAAAAAAAAG
1 GGGCATTTCCCCCCCTAAAATTAAACGTTGGGGGAGGGGCAAAATGCTAAA-AGAAAAAAAAAAG
* *
849278 AATAAGGGTCAAAATGACTATTCTGTCGAATGTTAG
65 AATAAGGATCAAAATGACTATTCTGTCAAATGTTAG
* * ** * *
849314 AGACATTTTTCCCCTTAAAATGAAACGTTGGGGGAGGGGCCAAAATG
1 GGGCATTTCCCCCCCTAAAATTAAACGTTGGGGGAGGGG-CAAAATG
849361 ACTATTCTGT
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
95 28 0.22
99 1 0.01
100 91 0.71
101 9 0.07
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (100 bp):
GGGCATTTCCCCCCCTAAAATTAAACGTTGGGGGAGGGGCAAAATGCTAAAAGAAAAAAAAAAGA
ATAAGGATCAAAATGACTATTCTGTCAAATGTTAG
Found at i:849558 original size:95 final size:92
Alignment explanation
Indices: 849354--849594 Score: 295
Period size: 95 Copynumber: 2.6 Consensus size: 92
849344 GGGGAGGGGC
* * * * *
849354 CAAAATGACTATTCTGTCGAATGTTAGAGACATTTTTT-CCCTAAAATGAAACATTGGGGGCCAA
1 CAAAATGACTATTCAGTCAAACGTTAGGGGC-TTTTTTGCCCTAAAATGAAACATTGGGGGCCAA
849418 AATGCTGAAGAAGAAAAAAAATAAGAGT
65 AATGCTGAAGAAGAAAAAAAATAAGAGT
* * * *
849446 CAAATTAACTATTCAGTCAAACGTTAGGGGCTTTTTTGCCTTAAAATGGAACATTAGGGGAGCCA
1 CAAAATGACTATTCAGTCAAACGTTAGGGGCTTTTTTGCCCTAAAATGAAACATT-GGGG-GCCA
* *
849511 AAATGCTGAATAATAAAAAAGAATAAGAGT
64 AAATGCTGAAGAAGAAAAAA-AATAAGAGT
* * * * *
849541 CAAAGTGACTATTCAGTCAGACGTGAGGGGCCTTTTTGCCCTAAAATAAAACAT
1 CAAAATGACTATTCAGTCAAACGTTAGGGGCTTTTTTGCCCTAAAATGAAACAT
849595 CGGAGGTCGA
Statistics
Matches: 126, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
91 6 0.05
92 39 0.31
93 4 0.03
94 22 0.17
95 55 0.44
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.26
Consensus pattern (92 bp):
CAAAATGACTATTCAGTCAAACGTTAGGGGCTTTTTTGCCCTAAAATGAAACATTGGGGGCCAAA
ATGCTGAAGAAGAAAAAAAATAAGAGT
Found at i:850104 original size:42 final size:42
Alignment explanation
Indices: 850045--850184 Score: 280
Period size: 42 Copynumber: 3.3 Consensus size: 42
850035 ACAAATATTC
850045 AGCACCTATATTCACAAGCATGCTGTGACAGGGACTGCTTAA
1 AGCACCTATATTCACAAGCATGCTGTGACAGGGACTGCTTAA
850087 AGCACCTATATTCACAAGCATGCTGTGACAGGGACTGCTTAA
1 AGCACCTATATTCACAAGCATGCTGTGACAGGGACTGCTTAA
850129 AGCACCTATATTCACAAGCATGCTGTGACAGGGACTGCTTAA
1 AGCACCTATATTCACAAGCATGCTGTGACAGGGACTGCTTAA
850171 AGCACCTATATTCA
1 AGCACCTATATTCA
850185 GCACTTGCAG
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 98 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (42 bp):
AGCACCTATATTCACAAGCATGCTGTGACAGGGACTGCTTAA
Found at i:852303 original size:35 final size:35
Alignment explanation
Indices: 852259--852332 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
852249 AGATTTACCT
852259 AAAGAAAAAATCTATCTAAAGATGTAGGGGACAGAG
1 AAAGAAAAAATCTATCTAAAGATGTA-GGGACAGAG
* *
852295 AAAG-AAAAATCTATCTCAAGATGTAGGGACAGAT
1 AAAGAAAAAATCTATCTAAAGATGTAGGGACAGAG
852329 AAAG
1 AAAG
852333 GAAAGCTACC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 12 0.33
35 20 0.56
36 4 0.11
ACGTcount: A:0.50, C:0.09, G:0.23, T:0.18
Consensus pattern (35 bp):
AAAGAAAAAATCTATCTAAAGATGTAGGGACAGAG
Found at i:859951 original size:28 final size:28
Alignment explanation
Indices: 859897--859951 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
859887 GTCATGTTAG
* * *
859897 CATAAAAATAATTAAAATACAATATCAA
1 CATAAAAACAATAAAAATACAACATCAA
859925 CATAAAAACAATAAAAATATC-ACATCA
1 CATAAAAACAATAAAAATA-CAACATCA
859952 GTTGATCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.22
Consensus pattern (28 bp):
CATAAAAACAATAAAAATACAACATCAA
Found at i:861544 original size:14 final size:14
Alignment explanation
Indices: 861527--861556 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
861517 AAGAACACAC
861527 AAAAAAGAAGAAAA
1 AAAAAAGAAGAAAA
*
861541 AAAAAAGTAGAAAA
1 AAAAAAGAAGAAAA
861555 AA
1 AA
861557 GAATCTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAGAAAA
Found at i:870608 original size:106 final size:106
Alignment explanation
Indices: 870405--870949 Score: 901
Period size: 106 Copynumber: 5.1 Consensus size: 106
870395 CAATGCAAGC
* * * *
870405 TGCGTTGTTTTGAGACCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
* * *
870470 TTTGTTGACAGCCAGCGGCCCCTTCGTTGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* * * * * * *
870511 TGTGCTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGATCCGAAATTGGGAAATTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
870576 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
870617 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
870682 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
870723 TGTGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTCG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
870788 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
*
870829 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
1 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
*
870894 TTTGTTGACAACCAGCGGTCCCTTCGTCGTAAAGTTGAACT
66 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
*
870935 TGCGTTGTCTTGAGT
1 TGCGTTGTCTGGAGT
870950 GGCACGATAT
Statistics
Matches: 408, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 408 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (106 bp):
TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
Found at i:871268 original size:37 final size:38
Alignment explanation
Indices: 871187--871268 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 38
871177 GCAAATTGTG
*
871187 TTGTTTC-AAGAGAAACTGTCTCAAGGGAGATAAAACT
1 TTGTTTCAAAAAGAAACTGTCTCAAGGGAGATAAAACT
* **
871224 TAG-TTCAAAAAGAAACTGTCTCAAGGGAGA-CGAACT
1 TTGTTTCAAAAAGAAACTGTCTCAAGGGAGATAAAACT
871260 TTGTTTCAA
1 TTGTTTCAA
871269 GGGAAACTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
36 9 0.24
37 29 0.76
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (38 bp):
TTGTTTCAAAAAGAAACTGTCTCAAGGGAGATAAAACT
Found at i:871377 original size:37 final size:37
Alignment explanation
Indices: 871326--871536 Score: 185
Period size: 37 Copynumber: 5.9 Consensus size: 37
871316 TCAATGTTTA
*
871326 TGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
871363 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
** * *
871399 CATTTCAAGGGAAA-TGTTTTC----GATG------TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGGGA-GACAAAATTT
871427 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
871465 TGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
871502 AGTTCCAAAAGAAACTGTCTCAAGGGAGACAAAAT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
871537 GTGTTTTAAG
Statistics
Matches: 138, Mismatches: 21, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
28 2 0.01
29 14 0.10
30 2 0.01
32 3 0.02
33 3 0.02
35 1 0.01
36 17 0.12
37 93 0.67
38 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:871409 original size:102 final size:102
Alignment explanation
Indices: 871234--871498 Score: 451
Period size: 102 Copynumber: 2.6 Consensus size: 102
871224 TAGTTCAAAA
* * *
871234 AGAAACTGTCTCAAGGGAGAC-GAACTTTGTTTCAAGGGAAACTATCTTAAGAGAGACAAAATTC
1 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
*
871298 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTTAAG
66 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
871335 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
1 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
*
871400 ATTTCAAGGGAAATGTTTTCGATGTTTATGTTTCAAG
66 ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
** *
871437 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAAAAACTGTCTCAAGAGAGACAAAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
871499 CTTAGTTCCA
Statistics
Matches: 155, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
101 21 0.14
102 134 0.86
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (102 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTC
ATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
Found at i:873082 original size:23 final size:24
Alignment explanation
Indices: 873054--873112 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
873044 CTTTTTGTCC
873054 CTTTTTCTTTTTGAT-TT-TTTCT
1 CTTTTTCTTTTTGATCTTGTTTCT
* *
873076 CTTTTTTCCTTTTGTTCTTGTTTCT
1 C-TTTTTCTTTTTGATCTTGTTTCT
*
873101 CTTTCTCTTTTT
1 CTTTTTCTTTTT
873113 CTTTGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 1 0.03
23 12 0.40
24 11 0.37
25 6 0.20
ACGTcount: A:0.02, C:0.19, G:0.05, T:0.75
Consensus pattern (24 bp):
CTTTTTCTTTTTGATCTTGTTTCT
Found at i:873148 original size:16 final size:16
Alignment explanation
Indices: 873106--873157 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
873096 TTTCTCTTTC
*
873106 TCTTTTTCTTTGTTT-T
1 TCTTTTGCTTT-TTTGT
*
873122 TTTTTTGCTTTTTTGCT
1 TCTTTTGCTTTTTTG-T
873139 TCTTTT-CTTTTTTGT
1 TCTTTTGCTTTTTTGT
873154 TCTT
1 TCTT
873158 GATTGGATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 8 0.26
16 17 0.55
17 6 0.19
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (16 bp):
TCTTTTGCTTTTTTGT
Found at i:876245 original size:15 final size:15
Alignment explanation
Indices: 876211--876248 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
876201 ATGTTAAGAG
876211 TGAA-AAAAATAAAA
1 TGAATAAAAATAAAA
**
876225 AAAATAAAAATAAAA
1 TGAATAAAAATAAAA
876240 TGAATAAAA
1 TGAATAAAA
876249 TCATTTAGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (15 bp):
TGAATAAAAATAAAA
Found at i:878079 original size:11 final size:12
Alignment explanation
Indices: 878057--878085 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
878047 TGACCATCAG
878057 ATAATAGGAGTT
1 ATAATAGGAGTT
878069 ATAAT-GGAGTT
1 ATAATAGGAGTT
878080 ATAATA
1 ATAATA
878086 ATTTACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (12 bp):
ATAATAGGAGTT
Found at i:902619 original size:17 final size:17
Alignment explanation
Indices: 902597--902635 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
902587 TAATTTACAC
902597 TCAAATAAATTGATGTT
1 TCAAATAAATTGATGTT
*
902614 TCAAAT-AATTTATGTT
1 TCAAATAAATTGATGTT
902630 T-AAATA
1 TCAAATA
902636 TTGGGTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 6 0.30
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (17 bp):
TCAAATAAATTGATGTT
Found at i:903875 original size:31 final size:31
Alignment explanation
Indices: 903840--903916 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
903830 GTCACTCTTC
* *
903840 AGTGACCACATCTTAATTAAAATGAAACGA-A
1 AGTGACCAAATCTTAATTAAAACGAAAC-ACA
*
903871 AGTGACTAAATCTTAATTAAAACGAAACACA
1 AGTGACCAAATCTTAATTAAAACGAAACACA
903902 AGTGACCAAATCTTA
1 AGTGACCAAATCTTA
903917 TGTTTTTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (31 bp):
AGTGACCAAATCTTAATTAAAACGAAACACA
Found at i:904711 original size:21 final size:21
Alignment explanation
Indices: 904685--904741 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
904675 CACATGGTCG
904685 GATAAAAACCGATCCGGATCA
1 GATAAAAACCGATCCGGATCA
* *
904706 GATAAAAACTGATCCGGATCG
1 GATAAAAACCGATCCGGATCA
*
904727 GATAAAATCCGATCC
1 GATAAAAACCGATCC
904742 AATTTTTTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (21 bp):
GATAAAAACCGATCCGGATCA
Found at i:905262 original size:21 final size:20
Alignment explanation
Indices: 905230--905268 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
905220 ATATTTCTTA
*
905230 TTTTTAATAAAAGTAGAGCC
1 TTTTTAAAAAAAGTAGAGCC
*
905250 TTTTTATAAAAAATTAGAG
1 TTTTTA-AAAAAAGTAGAG
905269 TAATTAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (20 bp):
TTTTTAAAAAAAGTAGAGCC
Found at i:905669 original size:12 final size:12
Alignment explanation
Indices: 905652--905676 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
905642 ATAAATAATT
905652 ATAAGAAAATAA
1 ATAAGAAAATAA
905664 ATAAGAAAATAA
1 ATAAGAAAATAA
905676 A
1 A
905677 ATCATCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
ATAAGAAAATAA
Found at i:907903 original size:18 final size:19
Alignment explanation
Indices: 907876--907911 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
907866 GGGCTCTAGG
907876 TTTTTAGTTTC-AATGAGA
1 TTTTTAGTTTCGAATGAGA
*
907894 TTTTTGGTTTCGAATGAG
1 TTTTTAGTTTCGAATGAG
907912 CAGATTTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (19 bp):
TTTTTAGTTTCGAATGAGA
Found at i:914136 original size:21 final size:21
Alignment explanation
Indices: 914098--914144 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
914088 AGTGTCCAAC
*
914098 AATAATAAAATCGATAGAAAA
1 AATAACAAAATCGATAGAAAA
* * *
914119 AATAACAAATTCGGTAGAAAT
1 AATAACAAAATCGATAGAAAA
914140 AATAA
1 AATAA
914145 TGTTTCCGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.62, C:0.06, G:0.11, T:0.21
Consensus pattern (21 bp):
AATAACAAAATCGATAGAAAA
Found at i:914743 original size:17 final size:17
Alignment explanation
Indices: 914703--914748 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
914693 TTTTAATATT
*
914703 ATATATTTAATTTATTTA
1 ATAT-TTTACTTTATTTA
914721 ATTATTTTACTTTATTTA
1 A-TATTTTACTTTATTTA
914739 ATATTTTACT
1 ATATTTTACT
914749 AATATAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 14 0.54
19 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTTTACTTTATTTA
Found at i:916439 original size:18 final size:18
Alignment explanation
Indices: 916412--916446 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
916402 ACAGCAGCCA
* *
916412 CCGCAGCCATTTATGATG
1 CCGCAACCATATATGATG
916430 CCGCAACCATATATGAT
1 CCGCAACCATATATGAT
916447 ACTGCCATCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
CCGCAACCATATATGATG
Found at i:920761 original size:41 final size:41
Alignment explanation
Indices: 920657--920761 Score: 174
Period size: 41 Copynumber: 2.6 Consensus size: 41
920647 AATATAATTC
* *
920657 ACCCCTACGTGGCGTATAGCGCACCCCCTGATCCGCGCTAT
1 ACCCCTACGTGGCGTATAGCGCGCCCCCTGATCCGCACTAT
* *
920698 ACCCCTACGTGACGTATAGCGCGCTCCCTGATCCGCACTAT
1 ACCCCTACGTGGCGTATAGCGCGCCCCCTGATCCGCACTAT
920739 ACCCCTACGTGGCGTATAGCGCG
1 ACCCCTACGTGGCGTATAGCGCG
920762 GATCAGGGGG
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.18, C:0.39, G:0.23, T:0.20
Consensus pattern (41 bp):
ACCCCTACGTGGCGTATAGCGCGCCCCCTGATCCGCACTAT
Found at i:920780 original size:41 final size:41
Alignment explanation
Indices: 920657--920783 Score: 105
Period size: 41 Copynumber: 3.1 Consensus size: 41
920647 AATATAATTC
* * ** *
920657 ACCCCTACGTGGCGTATAGCGC-ACCCCCTGATCCGCGCTAT
1 ACCCCTACGTGACGTATAGCGCGA-TCCAGGAGCCGCGCTAT
* ** * *
920698 ACCCCTACGTGACGTATAGCGCGCTCCCTGATCCGCACTAT
1 ACCCCTACGTGACGTATAGCGCGATCCAGGAGCCGCGCTAT
* * *
920739 ACCCCTACGTGGCGTATAGCGCGGAT-CAGGGGGCGCGCTAT
1 ACCCCTACGTGACGTATAGCGC-GATCCAGGAGCCGCGCTAT
920780 ACCC
1 ACCC
920784 ACGTGTAATC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
41 70 0.97
42 2 0.03
ACGTcount: A:0.18, C:0.38, G:0.25, T:0.19
Consensus pattern (41 bp):
ACCCCTACGTGACGTATAGCGCGATCCAGGAGCCGCGCTAT
Found at i:922093 original size:25 final size:25
Alignment explanation
Indices: 922056--922159 Score: 74
Period size: 25 Copynumber: 4.1 Consensus size: 25
922046 CATCTTAATG
* *
922056 TATAAATACTTAAATTCATAATATTT
1 TATATATACTTAAATT-AAAATATTT
*
922082 TATATATA-TTAACTTAAAATATTT
1 TATATATACTTAAATTAAAATATTT
922106 T-TATATTAACTT--ATTAAATATATTT
1 TATATA-T-ACTTAAATTAAA-ATATTT
* *
922131 TAT-TATTAAATTAATTTAAAATATTT
1 TATATA-T-ACTTAAATTAAAATATTT
922157 TAT
1 TAT
922160 TTTTAATTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
23 4 0.06
24 15 0.23
25 22 0.34
26 19 0.29
27 5 0.08
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATATACTTAAATTAAAATATTT
Found at i:922159 original size:26 final size:26
Alignment explanation
Indices: 922075--922177 Score: 99
Period size: 26 Copynumber: 4.1 Consensus size: 26
922065 TTAAATTCAT
* *
922075 AATATTTTA-TA-TATATTAACTTAA
1 AATATTTTATTATTAAATTAATTTAA
*
922099 AATATTTT-TATATTAACTT-A-TTAA
1 AATATTTTAT-TATTAAATTAATTTAA
922123 ATATATTTTATTATTAAATTAATTTAA
1 A-ATATTTTATTATTAAATTAATTTAA
* * *
922150 AATATTTTATTTTTAATTTTATTTAA
1 AATATTTTATTATTAAATTAATTTAA
922176 AA
1 AA
922178 ATATATTTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
24 13 0.20
25 18 0.27
26 30 0.45
27 5 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
AATATTTTATTATTAAATTAATTTAA
Found at i:922199 original size:29 final size:28
Alignment explanation
Indices: 922121--922206 Score: 97
Period size: 29 Copynumber: 3.1 Consensus size: 28
922111 TTAACTTATT
*
922121 AAATATATTTTATTATTAAATTAATTT--
1 AAATATATTTTATT-TTAAATTTATTTAA
*
922148 AAA-ATATTTTATTTTTAATTTTATTTAA
1 AAATATATTTTA-TTTTAAATTTATTTAA
*
922176 AAATATATTTTATGTTAAAATTTATTTAA
1 AAATATATTTTAT-TTTAAATTTATTTAA
922205 AA
1 AA
922207 GTATGACTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
26 18 0.36
27 5 0.10
28 4 0.08
29 23 0.46
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (28 bp):
AAATATATTTTATTTTAAATTTATTTAA
Done.